HOMEWORK2

 

due on 4/21

　

Kevin Lee, a graduate student in the department of life sciences, has purified a protein from rice. Here is the sequence of this protein -

ITCGQVNSAVGPCLTYARGGAGPSAACCSGVRSLKAAASTTADRRTACN

CLKNAARGIKGLNAGNAASIPSKCGVSVPYTISASIDCSRVS

1. Please help him to identify this protein in PDB.

    Rice nonspecific lipid transfer protein
 

2. Find the following data from its header file:

	PDB ID  -1RZL
	Experimental method - X-ray diffraction. Temp. 290 K. pH-7.8
	Location of its four helixs (i.e. Ala12 - Gly20)
	1. cys3-ala17
	2. ala22-ala37
	3. thr41-arg 56
	4. ala63-cys73
	Positions of its four disulfide bonds ( i.e. Cys3 - Cys24)
	3-50,  13-27,  28-73,  48-87.
	Name of the hetero atoms
	CXS   :  3-CYCLOHEXYL-1-PROPYLSULFONIC ACID
	SO4- :  SULFATE ION

3. Show two diferent views of this protein by Rasmol.
   

4. Show protein in cartoon with its four disulfide bonds in yellow color.

　

5. Measure the bond length of each disulfide bond ( -S-S- ) and calculate the average bond length of disulfide bond.

3 - 50  ----- 5.725
13-27  ----- 4.727
28-73  ----- 5.165
48-87  ----- 5.830

Avg. bond length of disulfide bond  ------ 5.36175 A